Variant report

Variant	rs60191176
Chromosome Location	chr3:179045360-179045361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:179040612..179043524-chr3:179043815..179047485,6	K562	blood:
2	chr3:179040206..179042939-chr3:179043914..179045418,3	MCF-7	breast:
3	chr3:179039368..179041573-chr3:179044284..179046543,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000121864	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11916825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11919840	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11925064	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11925248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11927084	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13317510	0.89[AMR][1000 genomes]
rs16830445	0.89[AMR][1000 genomes]
rs16830460	0.89[AMR][1000 genomes]
rs28512433	0.89[AMR][1000 genomes]
rs28522651	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55805052	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56210820	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs56265474	0.89[AMR][1000 genomes]
rs56280435	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57148977	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57526364	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57795346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58741861	0.89[AMR][1000 genomes]
rs59062224	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59333548	0.89[AMR][1000 genomes]
rs59511701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59564372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59833817	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60746059	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61246771	0.89[AMR][1000 genomes]
rs61325843	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6778235	0.89[AMR][1000 genomes]
rs6800044	0.89[AMR][1000 genomes]
rs6808033	0.89[AMR][1000 genomes]
rs6808866	1.00[AMR][1000 genomes]
rs73043406	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73043407	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73043409	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73043413	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73043415	0.97[AFR][1000 genomes]
rs73045191	0.89[AMR][1000 genomes]
rs73045195	0.89[AMR][1000 genomes]
rs73045198	0.89[AMR][1000 genomes]
rs73059758	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73059766	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7355835	0.89[AMR][1000 genomes]
rs73883508	0.89[AMR][1000 genomes]
rs73883509	0.89[AMR][1000 genomes]
rs73886620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7611533	0.89[AMR][1000 genomes]
rs7625719	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814990	0.89[AMR][1000 genomes]
rs9829054	0.89[AMR][1000 genomes]
rs9834493	0.89[AMR][1000 genomes]
rs9861354	0.89[AMR][1000 genomes]
rs9864857	0.89[AMR][1000 genomes]
rs9872939	0.89[AMR][1000 genomes]
rs9884070	0.89[AMR][1000 genomes]
rs9968068	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9968069	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9968075	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9968076	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3354111	chr3:178833305-179156908	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1002962	chr3:178943753-179224548	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv536815	chr3:178943753-179224548	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv1003021	chr3:178944806-179246179	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv1006584	chr3:178944822-179241429	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
8	nsv829806	chr3:178952363-179154373	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv1010137	chr3:178962897-179050787	Active TSS Enhancers Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
10	nsv471116	chr3:178968634-179252263	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
11	nsv592650	chr3:178968634-179252263	Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
12	nsv1010513	chr3:178976107-179196274	Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
13	nsv536816	chr3:178976107-179196274	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
14	nsv1003514	chr3:178990037-179177029	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179041800-179046600	Weak transcription	Gastric	stomach
2	chr3:179041800-179046600	Weak transcription	Small Intestine	intestine
3	chr3:179041800-179048000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:179042000-179046200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:179042400-179051800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:179042600-179046600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:179042600-179046600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:179042600-179046600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:179042600-179046600	Weak transcription	Brain Substantia Nigra	brain
10	chr3:179042600-179046600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:179042600-179048000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:179042600-179048000	Weak transcription	Colonic Mucosa	Colon
13	chr3:179042600-179054000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:179042800-179045400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:179042800-179045600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr3:179042800-179045800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:179042800-179045800	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr3:179042800-179045800	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:179042800-179046400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:179042800-179046600	Weak transcription	Brain Angular Gyrus	brain
21	chr3:179042800-179046600	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr3:179042800-179046600	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:179042800-179046600	Weak transcription	Thymus	Thymus
24	chr3:179042800-179046600	Weak transcription	HSMMtube	muscle
25	chr3:179042800-179047600	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr3:179043000-179045600	Weak transcription	Liver	Liver
27	chr3:179043000-179045600	Weak transcription	NHDF-Ad	bronchial
28	chr3:179043000-179045800	Weak transcription	Adipose Nuclei	Adipose
29	chr3:179043000-179046600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:179043000-179046600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr3:179043000-179046600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr3:179043000-179046800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:179043000-179046800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr3:179043000-179048000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr3:179043000-179048000	Weak transcription	Esophagus	oesophagus
36	chr3:179043000-179050000	Weak transcription	Aorta	Aorta
37	chr3:179043000-179050000	Weak transcription	Psoas Muscle	Psoas
38	chr3:179043000-179054800	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr3:179043000-179054800	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr3:179043000-179055600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:179043200-179045400	Weak transcription	A549	lung
42	chr3:179043200-179045400	Weak transcription	NH-A	brain
43	chr3:179043200-179045600	Weak transcription	NHLF	lung
44	chr3:179043200-179046000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:179043200-179046200	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr3:179043200-179046400	Weak transcription	Primary B cells from cord blood	blood
47	chr3:179043200-179046400	Weak transcription	Fetal Brain Female	brain
48	chr3:179043200-179046600	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr3:179043200-179046600	Weak transcription	Lung	lung
50	chr3:179043200-179046600	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links